miRNA display CGI


Results 1 - 20 of 31 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
23057 3' -60.4 NC_005178.1 + 26312 0.66 0.36731
Target:  5'- cGCCauGGCGGC-GUCACUcGCCagGGCg- -3'
miRNA:   3'- -CGG--CCGCCGcCAGUGA-CGGaaCUGga -5'
23057 3' -60.4 NC_005178.1 + 35712 0.66 0.333956
Target:  5'- gGCCGGCGuaGGUgCGCuucagcgucgUGCCgcuguaGACCUg -3'
miRNA:   3'- -CGGCCGCcgCCA-GUG----------ACGGaa----CUGGA- -5'
23057 3' -60.4 NC_005178.1 + 5340 0.66 0.325972
Target:  5'- cGCCGGCccugaaCGGUgGCgGCCUcGGCCa -3'
miRNA:   3'- -CGGCCGcc----GCCAgUGaCGGAaCUGGa -5'
23057 3' -60.4 NC_005178.1 + 24099 0.66 0.323605
Target:  5'- -aCGGUGGCGGUCuugccgauagggaaGCUGCgUaccagggcuuucUGGCCg -3'
miRNA:   3'- cgGCCGCCGCCAG--------------UGACGgA------------ACUGGa -5'
23057 3' -60.4 NC_005178.1 + 28234 0.66 0.333956
Target:  5'- cGCCGGCcgaGGCGGaUACaGCCgaggcgccGACCg -3'
miRNA:   3'- -CGGCCG---CCGCCaGUGaCGGaa------CUGGa -5'
23057 3' -60.4 NC_005178.1 + 20082 0.66 0.333956
Target:  5'- gGCCGGCaGCGGgCGCggGC--UGGCCg -3'
miRNA:   3'- -CGGCCGcCGCCaGUGa-CGgaACUGGa -5'
23057 3' -60.4 NC_005178.1 + 16703 0.66 0.333956
Target:  5'- gGCUGGCaGCGGgauucccaGCUGCUccuggacccagUUGACCg -3'
miRNA:   3'- -CGGCCGcCGCCag------UGACGG-----------AACUGGa -5'
23057 3' -60.4 NC_005178.1 + 12917 0.66 0.346199
Target:  5'- gGCCGGUGGUGGgcuggaggacguggCGCgccaggugcuggccgGCCUggUGACCc -3'
miRNA:   3'- -CGGCCGCCGCCa-------------GUGa--------------CGGA--ACUGGa -5'
23057 3' -60.4 NC_005178.1 + 35160 0.66 0.342082
Target:  5'- aGCCGGCuGGaggacGUCACUGUCggccaGGCCg -3'
miRNA:   3'- -CGGCCG-CCgc---CAGUGACGGaa---CUGGa -5'
23057 3' -60.4 NC_005178.1 + 27578 0.66 0.342082
Target:  5'- gGUCGGCGuCGGcCuucuuCUgcGCCUUGACCa -3'
miRNA:   3'- -CGGCCGCcGCCaGu----GA--CGGAACUGGa -5'
23057 3' -60.4 NC_005178.1 + 3468 0.67 0.310431
Target:  5'- cCUGGUGGUGGUCGaUGCCcuacgUGACg- -3'
miRNA:   3'- cGGCCGCCGCCAGUgACGGa----ACUGga -5'
23057 3' -60.4 NC_005178.1 + 7171 0.67 0.302875
Target:  5'- cGCCGGCcGCuGGagguacUCGCUGCaCUcGACCg -3'
miRNA:   3'- -CGGCCGcCG-CC------AGUGACG-GAaCUGGa -5'
23057 3' -60.4 NC_005178.1 + 17406 0.67 0.295461
Target:  5'- aGCCGGC-GCGG--GCUGCCgagcugggcGACCUc -3'
miRNA:   3'- -CGGCCGcCGCCagUGACGGaa-------CUGGA- -5'
23057 3' -60.4 NC_005178.1 + 5480 0.67 0.288189
Target:  5'- uGCUGGCGGgGGcUC-UUGCCcccGACCa -3'
miRNA:   3'- -CGGCCGCCgCC-AGuGACGGaa-CUGGa -5'
23057 3' -60.4 NC_005178.1 + 26089 0.67 0.295461
Target:  5'- cCCGaGgGGCGGaCGCUGCCgcagcgucGGCCa -3'
miRNA:   3'- cGGC-CgCCGCCaGUGACGGaa------CUGGa -5'
23057 3' -60.4 NC_005178.1 + 8778 0.68 0.2475
Target:  5'- uGCgGGCGGCGGUCuuUGCa---ACCg -3'
miRNA:   3'- -CGgCCGCCGCCAGugACGgaacUGGa -5'
23057 3' -60.4 NC_005178.1 + 20945 0.68 0.260509
Target:  5'- gGUCGGUggucagGGCGGUCAUagcGCCUccuuacUGGCCUu -3'
miRNA:   3'- -CGGCCG------CCGCCAGUGa--CGGA------ACUGGA- -5'
23057 3' -60.4 NC_005178.1 + 6561 0.68 0.267219
Target:  5'- cGCaCGGUGGCGG-CGgUGaCCU-GGCCg -3'
miRNA:   3'- -CG-GCCGCCGCCaGUgAC-GGAaCUGGa -5'
23057 3' -60.4 NC_005178.1 + 12414 0.68 0.2475
Target:  5'- cCCGGUGGCGGUgACUGa--UGACa- -3'
miRNA:   3'- cGGCCGCCGCCAgUGACggaACUGga -5'
23057 3' -60.4 NC_005178.1 + 12086 0.68 0.274069
Target:  5'- cGCCuGGUGGaguGGUCGCguggcggGCCU-GGCCg -3'
miRNA:   3'- -CGG-CCGCCg--CCAGUGa------CGGAaCUGGa -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.